| Round | Overall | Player |
|---|---|---|
| 1 | 4th | SS Jose Reyes NYN |
| 2 | 21st | SP Tim Lincecum SF |
| 3 | 28th | 2B Dan Uggla Fla |
| 4 | 45th | OF Ichiro Suzuki Sea |
| 5 | 52nd | RP Brad Lidge Phi |
| 6 | 69th | 1B Joey Votto Cin |
| 7 | 76th | SP Ricky Nolasco Fla |
| 8 | 93rd | OF Alexis Rios ChA |
| 9 | 100th | 3B Mike Young Tex |
| 10 | 117th | OF Shane Victorino Phi |
| 11 | 124th | C Jorge Posada NYA |
| 12 | 141st | 1B Todd Helton Col |
| 13 | 148th | SP Armando Galarraga Det |
| 14 | 165th | SP Paul Maholm Pit |
| 15 | 172nd | 1B Jason Giambi Col |
| 16 | 189th | OF Cameron Maybin Fla |
| 17 | 196th | SP Ubaldo Jimenez Col |
| 18 | 213th | C A.J. Pierzynski ChA |
| 19 | 220th | 3B Melvin Mora Bal |
| 20 | 237th | 2B Alexi Casilla Min |
| 21 | 244th | SS Cristian Guzman Was |
| 22 | 261st | SP Rick Porcello Det |
| 23 | 268th | 1B Dan Murphy NYN |
| 24 | 285th | SP Clay Buchholz Bos |
| 25 | 292nd | SP Dana Eveland Oak |
| 26 | 309th | OF Randy Winn SF |
| 27 | 316th | SP Pedro Martinez Phi |
| 28 | 333rd | RP Joel Zumaya Det |
| 29 | 340th | OF Brian S. Giles SD |